Non-Coding RNA Search

Ss1.1-Emb1-C0005189_E24.5

Sequence:


               
               AAGCTCAAAGGAGTAGATTTGCTTCGGAGTTGGTGCTACAAAGGGTTCCACACAGGAGCC
ATCTCTGATTCTGCTCCAGTGTGGTCTCTTCCGACATCAATCCTGACTGTCCCAAAGGGT
GATGTGATACTCAGTGGTTTCTCCAAGTCAGAGATGGGCAAGCTGGGGAAGCATGGCTCC
TCCAAGGGAAGCATACCACTCTCTGAAGATGGGGCTGTGCCCAAGCCCAAGAAGACTCAA
GCTAGCCTTCCCCCTTTCCCCAGGAAGCCCAGTTCCTCAAAGGACAGTGAAGACACCAGC
AAAGAGCCCAGCCTCTCCACCCAGATGTTACCTGTGATCAAGTACTCTGGGCAGACTTCG
AGACTCTCTGCTTCCCCCTCCACCCAGTCAACTGGTGACTCCCTCCTGGCTGCTGTGAGC
CCATGACTGGCCTCTTTCCACTAGCCCCTGCCCAGGCGCACCAGCGTCAGCTACCTCATG
GGAACCGGCCGGCCGGCAAGCCTGAGCCCCCACCCCCTCCACCTTGCCCCTCCTCAGAGT
ATTTTTTGAAGCAGTTGAATTGTAGGAATGGGTATCTGGTGGGCGGAAGGGTGGTGGGGG
ACTGGGAGAAGGTGAGGAAGGCTCACTGACTGGCACCTTCCATCTCAGCAGAGAAGCCAA
TGATGGCTACTCAGCCTTATAAAGCAGGGTTTGGTT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGCTCAAAGGAGTAGATTTGCTTCGGAGTTGGTGCTACAAAGGGTTCCACACAGGAGCC
ATCTCTGATTCTGCTCCAGTGTGGTCTCTTCCGACATCAATCCTGACTGTCCCAAAGGGT
GATGTGATACTCAGTGGTTTCTCCAAGTCAGAGATGGGCAAGCTGGGGAAGCATGGCTCC
TCCAAGGGAAGCATACCACTCTCTGAAGATGGGGCTGTGCCCAAGCCCAAGAAGACTCAA
GCTAGCCTTCCCCCTTTCCCCAGGAAGCCCAGTTCCTCAAAGGACAGTGAAGACACCAGC
AAAGAGCCCAGCCTCTCCACCCAGATGTTACCTGTGATCAAGTACTCTGGGCAGACTTCG
AGACTCTCTGCTTCCCCCTCCACCCAGTCAACTGGTGACTCCCTCCTGGCTGCTGTGAGC
CCATGACTGGCCTCTTTCCACTAGCCCCTGCCCAGGCGCACCAGCGTCAGCTACCTCATG
GGAACCGGCCGGCCGGCAAGCCTGAGCCCCCACCCCCTCCACCTTGCCCCTCCTCAGAGT
ATTTTTTGAAGCAGTTGAATTGTAGGAATGGGTATCTGGTGGGCGGAAGGGTGGTGGGGG
ACTGGGAGAAGGTGAGGAAGGCTCACTGACTGGCACCTTCCATCTCAGCAGAGAAGCCAA
TGATGGCTACTCAGCCTTATAAAGCAGGGTTTGGTT

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               169-560, - strand, RNAz p=0.999448
               

               
               597-696, + strand, RNAz p=0.592301

Predicted RNA structure(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               169-560, - strand, RNAz p=0.999448
               

               
               597-696, + strand, RNAz p=0.592301

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               219-397, - strand, RNAmicro p=0.999999

Predicted microRNA(s): 1 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               219-397, - strand, RNAmicro p=0.999999

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               169-560, DB817673 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|DB817673.1|), blast E-value=0, identity=100% 
               

               
               193-560, 93966 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW658158.1|), 
blast E-value=0, identity=88.32% 
               

               
               270-560, 1250500 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN513539.1|), 
blast E-value=0, identity=90.38% 
               

               
               270-560, 1251268 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN514204.1|), 
blast E-value=0, identity=90.38% 
               

               
               193-560, 000903BEMN012635HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY048550.1|), blast E-value=0, identity=88.32% 
               

               
               193-560, LB02950.CR_D06 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE354649.1|), 
blast E-value=0, identity=88.32%

Similar Transcript(s): 6 entry(ies)

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PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               169-560, DB817673 full-length enriched swine cDNA library, adult trachea Sus 
(dbj|DB817673.1|), blast E-value=0, identity=100% 
               

               
               193-560, 93966 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|AW658158.1|), 
blast E-value=0, identity=88.32% 
               

               
               270-560, 1250500 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN513539.1|), 
blast E-value=0, identity=90.38% 
               

               
               270-560, 1251268 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN514204.1|), 
blast E-value=0, identity=90.38% 
               

               
               193-560, 000903BEMN012635HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY048550.1|), blast E-value=0, identity=88.32% 
               

               
               193-560, LB02950.CR_D06 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE354649.1|), 
blast E-value=0, identity=88.32%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_014640, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_014640, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               169-696, gnl|bosTau2|chr2 (64716306-64715781)
               

               
               169-696, gnl|Hg17|chr2 (219444363-219444911)
               

               
               169-696, gnl|Mm7|chr1 (74937123-74937650)

Aligned organism(s): 3 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               169-696, gnl|bosTau2|chr2 (64716306-64715781)
               

               
               169-696, gnl|Hg17|chr2 (219444363-219444911)
               

               
               169-696, gnl|Mm7|chr1 (74937123-74937650)

Expressed library(ies): 3 entry(ies)

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Expressed library(ies): 3 entry(ies)

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               fbs (0.175346)
               

               
               che (0.136314)
               

               
               jej (0.0989218)

Expressed library(ies): 3 entry(ies)

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Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               fbs (0.175346)
               

               
               che (0.136314)
               

               
               jej (0.0989218)

	169-560, - strand, RNAz p=0.999448
	597-696, + strand, RNAz p=0.592301

	169-560, DB817673 full-length enriched swine cDNA library, adult trachea Sus (dbj\|DB817673.1\|), blast E-value=0, identity=100%
	193-560, 93966 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW658158.1\|), blast E-value=0, identity=88.32%
	270-560, 1250500 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN513539.1\|), blast E-value=0, identity=90.38%
	270-560, 1251268 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN514204.1\|), blast E-value=0, identity=90.38%
	193-560, 000903BEMN012635HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY048550.1\|), blast E-value=0, identity=88.32%
	193-560, LB02950.CR_D06 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE354649.1\|), blast E-value=0, identity=88.32%

	169-696, gnl\|bosTau2\|chr2 (64716306-64715781)
	169-696, gnl\|Hg17\|chr2 (219444363-219444911)
	169-696, gnl\|Mm7\|chr1 (74937123-74937650)